LOCUS       CP065864                2265 bp    DNA     circular BCT 21-DEC-2020
DEFINITION  Salmonella enterica subsp. enterica serovar Westhampton strain
            CFSAN103867 plasmid pUWI-H17.5, complete sequence.
ACCESSION   CP065864
VERSION     CP065864.1
DBLINK      BioProject: PRJNA186035
            BioSample: SAMN14677225
KEYWORDS    .
SOURCE      Salmonella enterica subsp. enterica serovar Westhampton
  ORGANISM  Salmonella enterica subsp. enterica serovar Westhampton
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 2265)
  AUTHORS   Maguire,M., Khan,A., Adesiyun,A., Georges,K. and
            Gonzalez-Escalona,N.
  TITLE     Closed genome of a Salmonella enterica serotype Senftenberg carrying
            the mcr-9 gene isolated from chicken in Trinidad and Tobago
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2265)
  CONSRTM   GenomeTrakr network: Whole genome sequencing for foodborne pathogen
            traceback
  TITLE     Direct Submission
  JOURNAL   Submitted (01-MAY-2020) Center for Food Safety and Applied
            Nutrition, US Food and Drug Administration, 5100 Paint Branch Pkwy,
            College Park, MD, USA
REFERENCE   3  (bases 1 to 2265)
  AUTHORS   Gonzalez-Escalona,N.
  TITLE     Direct Submission
  JOURNAL   Submitted (04-DEC-2020) ORS/DM/MMSB, Food and Drug
            Administration-College Park, 5001 Campus Drive, College Park, MD
            20740-3835, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 65.0x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 12/10/2020 12:18:44
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 5.0
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 5,088
            CDSs (total)                      :: 4,968
            Genes (coding)                    :: 4,823
            CDSs (with protein)               :: 4,823
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 145
            CDSs (without protein)            :: 145
            Pseudo Genes (ambiguous residues) :: 0 of 145
            Pseudo Genes (frameshifted)       :: 75 of 145
            Pseudo Genes (incomplete)         :: 81 of 145
            Pseudo Genes (internal stop)      :: 24 of 145
            Pseudo Genes (multiple problems)  :: 27 of 145
            CRISPR Arrays                     :: 3
            ##Genome-Annotation-Data-END##
            Bacteria and source DNA available from Professor Emeritus Abiodun
            A. Adesiyun DVM (ABU), MPH, Ph.D. (Minnesota) School of Veterinary
            Medicine Faculty of Medical Sciences University of the West Indies
            St. Augustine, Trinidad and Tobago.
            The annotation was added by the NCBI Prokaryotic Genome Annotation
            Pipeline (PGAP). Information about PGAP can be found here:
            https://www.ncbi.nlm.nih.gov/genome/annotation_prok/
FEATURES             Location/Qualifiers
     source          1..2265
                     /organism="Salmonella enterica subsp. enterica serovar
                     Westhampton"
                     /mol_type="genomic DNA"
                     /strain="CFSAN103867"
                     /serovar="Westhampton"
                     /isolation_source="broken egg shells- hatchery"
                     /sub_species="enterica"
                     /db_xref="taxon:356621"
                     /plasmid="pUWI-H17.5"
                     /geo_loc_name="Trinidad and Tobago"
                     /collection_date="2019"
                     /collected_by="University of the West Indies, St. Augustine
                     Campus- Faculty of Medical Sciences- Veterinary Public
                     Health Laboratory, School of Veterinary Medicine"
     gene            469..669
                     /locus_tag="HIX68_0025430"
     CDS             469..669
                     /locus_tag="HIX68_0025430"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001046776.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QQD62757.1"
                     /translation="MNLCPDERLLFVRMISAMLRRSGGDAGAVMFEAYRHIVSDTNQAR
                     RSYMLDLLESVRHDYVHGGYT"
                     /name="hypothetical protein"
     gene            complement(717..905)
                     /locus_tag="HIX68_0025435"
     CDS             complement(717..905)
                     /locus_tag="HIX68_0025435"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165985.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="QQD62756.1"
                     /translation="MTKQESAALNMAKFIRAQSLLLLEKLDVLDLDDEAADCERMHEQA
                     EALYQKLSARFGIQDGE"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(1157..1474)
                     /locus_tag="HIX68_0025440"
     CDS             complement(1157..1474)
                     /locus_tag="HIX68_0025440"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000718044.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QQD62755.1"
                     /translation="MKKIFILSAALIMAGCATKQYPQAANVTGPESSAMDCKAVALEIA
                     KTRSVQQEIEATGEFDGRTVLGFLGDFGIGNGMAKGEARKKAANRLNQLEALKAAKCAD
                     Q"
                     /name="hypothetical protein"
     Typing          87..259
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="91.954"
                     /coverage="100.0"
                     /evalue="2.04e-62"
     Typing          complement(1650..2171)
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="88.868"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 cttcctggca tctcccagga aatttccgcc ccattcgtaa gcccgcaccg ctcgccgcag
       61 ccgaacgacc gagcgcagcg agtcagtgag cgaggaagcg gaatatctcc tgtctcatat
      121 attccgctta cgctctgctg ctgcattttc ctcctgccac atgaagcact tcactgattc
      181 ccgcacccgt gcctacatag taagccagta tacactccgc tagcgctacg tgactggttc
      241 agggctgcgc cccgacaccc gctaaaagca ctgacgcgcc tgcggcttgc ccaaccccgc
      301 gccgtccggg aaagaatttc ccgatcgacc cgacgtttct gtttacctgt gatgttaacg
      361 tttggatctt tttcccgggt ttacctattt taatgaagcg taatgaagcg ttcacagctg
      421 acgttaatag atgggtgctt catgtttggt ttttcaccag gagaacttat gaacctttgc
      481 cccgatgaac gtctgctctt tgtgcggatg atttccgcta tgcttcgccg ttcgggcggt
      541 gatgcgggtg ctgttatgtt tgaggcgtat cgccatattg tgtccgatac caatcaagct
      601 cgtcgttcct acatgctcga cctgctcgaa agcgtcaggc atgactatgt acacggtggg
      661 tatacatagt tgccctggat acgcttttcg tctaagtgag cgttcttttc gtctctttat
      721 tcgccgtcct gtataccgaa gcgtgcgctc agcttctgat aaagcgcttc tgcctgttcg
      781 tgcattcgct cacagtcggc tgcctcgtca tcaagatcga gcacgtcgag tttttcgagc
      841 agcagcagcg actgcgcccg gataaatttt gccatgttca gtgcggctga ttcctgtttt
      901 gtcatacggc tttttcccgg ttttatggtg atcgcagact gaaatcttac ttcatgcact
      961 tgcgcgcata ctcatgcatg ccgtaaaaac agagcctgcg cgtttctggc gggttttcgg
     1021 gtggtttgtt gcctgtttta ccggtttccc gtcagaaacg ccctgagggc gcctgaggcg
     1081 gtgcgggcaa cggatgttat ggtaaatcca gctgattggc aggtataaaa aaagccccgc
     1141 agggcttttt tgtaccttat tgatctgcac actttgcagc cttcagggct tccagctgat
     1201 ttagccggtt agctgctttt ttgcgggctt cgccttttgc catgccattt cctatcccaa
     1261 aatcacccag gaaacctaat acggtgcgcc cgtcaaattc gccggttgcc tcaatttctt
     1321 gttgtacact gcgcgttttt gcgatttcca gagctaccgc tttgcaatcc attgcggaag
     1381 attctggacc ggtgacgttc gcggcctgtg gatattgctt tgttgcgcat cctgccatga
     1441 tcagcgctgc cgataggatg aatatttttt tcaaaattat ccttatttta tttaggcata
     1501 gttaagagat acccatttta tcggcaggaa atgagggttt tttagttgaa ttttgggagg
     1561 ggcaaggttc catattggtc gaggattctg gagctgaccg gcaacggcca gcgcggctat
     1621 gggccatgcg gtggttgagc atagaaagga tcttcttgag ttcctttttt tctacgcgta
     1681 atctcttgct ctgaaaacga aaaaaccacc tggggaggtg gtttttcgaa ggttaagtca
     1741 gttggggaac tgcttaacct ggtaactggc ttcagcagag cgcagatacc aaatactgtc
     1801 cttccagtgt agccgtagtt aggccaccac ttcaagaact ctatagcacc atctacatta
     1861 actcgctctg ctaatcctgt taccagtggc tgctgccagt ggcgctttgt cgtgtctttc
     1921 cgggttggac tcaagacgat agttaccgga taaggcgcag cagtcggact gaacgggggg
     1981 ttcgtgcata cagtccagct tggagcgaac tgccttcccg gaaccgagtg tcaggcgtgg
     2041 aatgagacaa acgcggccat aacagcggaa tgacaccggt aaaccgaaag gcaggaacag
     2101 gagagcgcac gagggagccg ccagggggaa acgcctggta tctttatagt cctgtcgggt
     2161 ttcgccacca ctgatttgag cgtcagattt cgtgatgctt gtcagggggg cggagcctat
     2221 ggaaaaacgg cttcgccgcg gccttatcgt ttccctgtta agttt
//
